BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0001.0471.p
         (424 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309816|ref|YP_003773908.1| 3-deoxy-d-manno-octulosonic-aci...   675   0.0  

>gi|300309816|ref|YP_003773908.1| 3-deoxy-d-manno-octulosonic-acid
           (KDO) transferase [Herbaspirillum seropedicae SmR1]
          Length = 428

 Score =  675 bits (1741), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 345/424 (81%), Positives = 378/424 (89%)

Query: 1   MRLLYCAIWWLALPLVLLRLWRRGRKEPGYRAHVAERLGFYPRLPDPQARFIWVHAVSVG 60
           MR LY A+WW A+PLVLLRLWRRGR+EPGYRAHVAERLGFYPRLPDPQARFIWVHAVSVG
Sbjct: 1   MRWLYSALWWFAMPLVLLRLWRRGRQEPGYRAHVAERLGFYPRLPDPQARFIWVHAVSVG 60

Query: 61  ETRAAQPLIEALLQHYPQHSILLTCMTATGRDTGAQVYGKHGERVLQSFLPYDIGWMCAR 120
           ETRAA+PL++ALL  YP   ILLTCMTATGR TGAQV+GKHG RV+QSFLPYD GWMC+R
Sbjct: 61  ETRAAEPLVDALLSRYPDCKILLTCMTATGRATGAQVFGKHGARVVQSFLPYDTGWMCSR 120

Query: 121 FLRHFRPVVCVLMETEVWPTLIEQCRRHRVPVMLANARLSARSLRRGLRFATLLRPTAEA 180
           FLRHFRP+ C+LMETEVWP LI QCRRH VPVMLANARLS RSLRRG RFA+LLRP AEA
Sbjct: 121 FLRHFRPLACILMETEVWPNLIRQCRRHDVPVMLANARLSERSLRRGQRFASLLRPAAEA 180

Query: 181 IDVVGAQSEADAERLRAFGARHVEVTGSLKFDVQPPVEMVERGLGWKRGIGERKVLLCAS 240
           IDVVGAQS+ DA RL AFGARHVEVTGSLKFDVQPP+++VERG  WKR +GERKVLLCAS
Sbjct: 181 IDVVGAQSDGDARRLLAFGARHVEVTGSLKFDVQPPMQVVERGREWKRALGERKVLLCAS 240

Query: 241 TREGEESLILDALAKLGRSDWLTVIVPRHPQRFDEVAGMIRSRGLRLRRRSELAPDTALD 300
           TREGEE LILDALAKLGR DWLTVIVPRHPQRFDEVA +IR+RGLRLRRRSELA D A++
Sbjct: 241 TREGEEVLILDALAKLGRPDWLTVIVPRHPQRFDEVAALIRARGLRLRRRSELAQDFAVE 300

Query: 301 EVDVLLGDSMGEMFAYYAACDAAFIGGSLLPLGGQNLIEAFALGKPVLIGEHTFNFLHIS 360
           +VDV+LGDSMGEMFAYYA  D +FIGGSLLPLGGQNLIEA ALGKPVLIGEHTFNFL I+
Sbjct: 301 DVDVVLGDSMGEMFAYYALSDVSFIGGSLLPLGGQNLIEALALGKPVLIGEHTFNFLRIT 360

Query: 361 EDAVADGAATRVEDAVALMRQWAQLMADPARMEAMAQAATMFAQRHQGATARSLALLQPL 420
           E+AVADGAA RV DAV L+RQW+ L+A+P R++ MAQAA  FAQRHQGAT RSL LL PL
Sbjct: 361 EEAVADGAAVRVGDAVELLRQWSILIAEPDRIDEMAQAALSFAQRHQGATDRSLVLLAPL 420

Query: 421 MGRA 424
           + RA
Sbjct: 421 LERA 424


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.326    0.138    0.427 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,259,033
Number of extensions: 49764
Number of successful extensions: 220
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 220
Number of HSP's successfully gapped: 1
Length of query: 424
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 336
Effective length of database: 1,203,190
Effective search space: 404271840
Effective search space used: 404271840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 132 (55.5 bits)